Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 126 of 316
Found at i:39945476 original size:17 final size:17
Alignment explanation
Indices: 39945435--39945539 Score: 81
Period size: 17 Copynumber: 5.9 Consensus size: 17
39945425 ACAATAAAAA
*
39945435 TAATAATAAAATAAT-G
1 TAATAATAATATAATAG
* *
39945451 TACTAATAATGTAATAG
1 TAATAATAATATAATAG
39945468 TAATAATAAAATATAATAG
1 TAATAAT--AATATAATAG
39945487 TTAAT-ATAATATTAA-AG
1 -TAATAATAATA-TAATAG
*
39945504 TAATACTAAATATAATATG
1 TAATAAT-AATATAATA-G
39945523 ATAATAATAATTATAAT
1 -TAATAATAA-TATAAT
39945540 GCAGTACAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
16 16 0.23
17 17 0.24
18 8 0.11
19 14 0.20
20 16 0.23
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATAATATAATAG
Found at i:39945530 original size:23 final size:22
Alignment explanation
Indices: 39945480--39945531 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
39945470 ATAATAAAAT
* * *
39945480 ATAATAGTTAATATAATATTAA
1 ATAATACTAAATATAATATGAA
39945502 AGTAATACTAAATATAATATGATA
1 A-TAATACTAAATATAATATGA-A
39945526 ATAATA
1 ATAATA
39945532 ATTATAATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 22 0.88
24 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
ATAATACTAAATATAATATGAA
Found at i:39947751 original size:32 final size:32
Alignment explanation
Indices: 39947702--39947774 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
39947692 TTATATATAT
*
39947702 TTTTATATGTTATATATACTTTTAATATTGTA
1 TTTTATATGATATATATACTTTTAATATTGTA
* *
39947734 TTTTATAT-ATATCATATATTTTTAATGTTGTA
1 TTTTATATGATAT-ATATACTTTTAATATTGTA
39947766 TTATTATAT
1 TT-TTATAT
39947775 TTTAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 3 0.08
32 27 0.75
33 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (32 bp):
TTTTATATGATATATATACTTTTAATATTGTA
Found at i:39947795 original size:53 final size:50
Alignment explanation
Indices: 39947688--39947798 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 50
39947678 ACTTAGGTAT
* * **
39947688 TATATTATATATATTTTTATATGTTATATATACTTTTAATATTGTATTTTA
1 TATA-TATATATATTTTTATATGTTATATATACTTTTAATATTATACTACA
39947739 TATATATCATATATTTTTA-ATGTTGTATTATTATA-TTTTAATATTATACTACA
1 TATATAT-ATATATTTTTATATG-T-TA-TA-TATACTTTTAATATTATACTACA
39947792 TATATAT
1 TATATAT
39947799 TTTCATATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
50 6 0.12
51 16 0.31
52 2 0.04
53 23 0.45
54 4 0.08
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (50 bp):
TATATATATATATTTTTATATGTTATATATACTTTTAATATTATACTACA
Found at i:39947816 original size:22 final size:22
Alignment explanation
Indices: 39947747--39947817 Score: 56
Period size: 24 Copynumber: 3.2 Consensus size: 22
39947737 TATATATATC
* **
39947747 ATATAT-TTTTAATGTTGTATT
1 ATATATATTTTAATATTACATT
* *
39947768 AT-TATATTTTAATATTATACTAC
1 ATATATATTTTAATATTACA-T-T
*
39947791 ATATATATTTTCATATTACATT
1 ATATATATTTTAATATTACATT
39947813 ATATA
1 ATATA
39947818 CATATATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
20 3 0.08
21 13 0.32
22 6 0.15
23 3 0.08
24 15 0.38
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (22 bp):
ATATATATTTTAATATTACATT
Found at i:39947822 original size:24 final size:24
Alignment explanation
Indices: 39947771--39947822 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
39947761 TTGTATTATT
* *
39947771 ATATTTTAATATTATACTACATAT
1 ATATTTTAATATTACACTACATAC
* * *
39947795 ATATTTTCATATTACATTATATAC
1 ATATTTTAATATTACACTACATAC
39947819 ATAT
1 ATAT
39947823 ATTTTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (24 bp):
ATATTTTAATATTACACTACATAC
Found at i:39947832 original size:26 final size:26
Alignment explanation
Indices: 39947781--39947871 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
39947771 ATATTTTAAT
39947781 ATTATACTACATATATATTTTCATATTAC
1 ATTATA-TACATATAT-TTTT-ATATTAC
*
39947810 ATTATATACATATATTTTTATA-TAT
1 ATTATATACATATATTTTTATATTAC
** *
39947835 ATTATCATGTATATATTTTGATATTAC
1 ATTAT-ATACATATATTTTTATATTAC
39947862 TAGTTATATA
1 -A-TTATATA
39947872 TTACTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
25 7 0.13
26 17 0.33
27 6 0.12
28 12 0.23
29 10 0.19
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (26 bp):
ATTATATACATATATTTTTATATTAC
Found at i:39951851 original size:30 final size:31
Alignment explanation
Indices: 39951817--39951879 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
39951807 AGCTTATATC
* *
39951817 TTTATAATTTTTAAAAGATTAAATTA-AATT
1 TTTATAATTTTAAAAAGATTAAAGTACAATT
*
39951847 TTTATAATTTTAAAAAGGTTAAAGTACAATT
1 TTTATAATTTTAAAAAGATTAAAGTACAATT
39951878 TT
1 TT
39951880 ACTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTAAAAAGATTAAAGTACAATT
Found at i:39955676 original size:31 final size:31
Alignment explanation
Indices: 39955601--39955676 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
39955591 TTACAATTTG
* * *
39955601 GTCACTAAGCTATTCGAACGTTTTCATTTAA
1 GTCACTAGGCTATTCAAAAGTTTTCATTTAA
* *
39955632 GTCAAT-GAACTATTCAAAAGTTCTT-ATTTAA
1 GTCACTAG-GCTATTCAAAAGTT-TTCATTTAA
39955663 GTCACTAGGCTATT
1 GTCACTAGGCTATT
39955677 AAGTTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (31 bp):
GTCACTAGGCTATTCAAAAGTTTTCATTTAA
Found at i:39968450 original size:16 final size:17
Alignment explanation
Indices: 39968425--39968457 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39968415 TCATATTGAA
39968425 AAAAATATTAATCATAT
1 AAAAATATTAATCATAT
*
39968442 AAAAA-ATTAATTATAT
1 AAAAATATTAATCATAT
39968458 TCAATAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATTAATCATAT
Found at i:39972165 original size:16 final size:16
Alignment explanation
Indices: 39972144--39972203 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
39972134 TTAATCACTT
39972144 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
39972160 TAATATT-TATCAAAA
1 TAATATTAAATTAATA
*
39972175 TAAATATTATATTAAATA
1 T-AATATTAAATT-AATA
*
39972193 TTATATTAAAT
1 TAATATTAAAT
39972204 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.18
16 13 0.38
17 11 0.32
18 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:39972190 original size:12 final size:12
Alignment explanation
Indices: 39972175--39972208 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
39972165 TTTATCAAAA
39972175 TAAATATTATAT
1 TAAATATTATAT
39972187 TAAATATTATAT
1 TAAATATTATAT
*
39972199 TAAATCTTAT
1 TAAATATTAT
39972209 TAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:39972261 original size:62 final size:59
Alignment explanation
Indices: 39972147--39972263 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
39972137 ATCACTTTAA
* * *
39972147 TATTAAATTAATATAATATTTATCAAAATAAATATTATATTAAATATTATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAAATAAATATTAAATTAAATATTATATTAAATCT
* *
39972206 TATTAAAATAATAGAATGTTTATCTACAAGATAAATGTTAAATTAAAT-TTAATATTAA
1 TATTAAAATAATAGAATATTTATC-A-AA-ATAAATATTAAATTAAATATT-ATATTAA
39972264 GATAATCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 21 0.43
60 1 0.02
61 4 0.08
62 23 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAAATAAATATTAAATTAAATATTATATTAAATCT
Found at i:39972320 original size:20 final size:19
Alignment explanation
Indices: 39972295--39972332 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
39972285 TTAATAAAAT
*
39972295 ATTATTAAGATAAGTATTAA
1 ATTATTAAAATAA-TATTAA
39972315 ATTATTAAAATAATATTA
1 ATTATTAAAATAATATTA
39972333 TTTTCGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTATTAAAATAATATTAA
Found at i:39981622 original size:31 final size:29
Alignment explanation
Indices: 39981587--39981644 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
39981577 AATAGTATTT
39981587 TATTAAT-TTAATATTAAAGTGATTATCTTAA
1 TATTAATATTAAT-TTAAAGT--TTATCTTAA
39981618 TATTAATATTAATTTAAAGTTTATCTT
1 TATTAATATTAATTTAAAGTTTATCTT
39981645 GTAGATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 14 0.54
32 5 0.19
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAATATTAATTTAAAGTTTATCTTAA
Found at i:39997678 original size:18 final size:17
Alignment explanation
Indices: 39997655--39997702 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
39997645 AAAGAATTCA
*
39997655 AAAAATTTAAGAAAATAC
1 AAAAATTCAA-AAAATAC
39997673 AAAAATTCAAAAAATA-
1 AAAAATTCAAAAAATAC
* *
39997689 TATAATTCAAAAAA
1 AAAAATTCAAAAAA
39997703 ATATATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 12 0.44
17 6 0.22
18 9 0.33
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAATTCAAAAAATAC
Found at i:39997708 original size:17 final size:16
Alignment explanation
Indices: 39997676--39997707 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39997666 AAAATACAAA
39997676 AATTCAAAAAATATAT
1 AATTCAAAAAATATAT
39997692 AATTCAAAAAA-ATAT
1 AATTCAAAAAATATAT
39997707 A
1 A
39997708 TTAAATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTCAAAAAATATAT
Found at i:40000479 original size:24 final size:24
Alignment explanation
Indices: 40000447--40000517 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
40000437 TCTTACTTAT
*
40000447 TCGCACACATAGTGCCACGT-TTCC
1 TCGCACACATAGTGCCACGTAGT-C
* *
40000471 TCGCACACAGAGTGCCATGTAGTC
1 TCGCACACATAGTGCCACGTAGTC
*
40000495 TCGCACACATAGTGCCACTTAGT
1 TCGCACACATAGTGCCACGTAGT
40000518 TTTTGCACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAGTC
Found at i:40001548 original size:22 final size:22
Alignment explanation
Indices: 40001501--40001542 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
40001491 TTTTGTACTG
40001501 AATTATAAATAATTAAAATTTC
1 AATTATAAATAATTAAAATTTC
*
40001523 AATTA-AACATAATTACAATT
1 AATTATAA-ATAATTAAAATT
40001543 ATAATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTATAAATAATTAAAATTTC
Found at i:40002271 original size:24 final size:25
Alignment explanation
Indices: 40002233--40002285 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
40002223 AACTGTTGTT
* *
40002233 TTTTCTTCTTCTTTTTTTTT-GCTA
1 TTTTCTTCTTATTTTTTTTTCACTA
*
40002257 TTTTCTTGTTATTTTTTTTTCACTA
1 TTTTCTTCTTATTTTTTTTTCACTA
40002282 TTTT
1 TTTT
40002286 GCTAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.08, C:0.13, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTCTTCTTATTTTTTTTTCACTA
Found at i:40002331 original size:14 final size:14
Alignment explanation
Indices: 40002297--40002331 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
40002287 CTAATATTTC
*
40002297 ACTATTATGTTGTT
1 ACTATTTTGTTGTT
40002311 ACTATTTTGTTGTT
1 ACTATTTTGTTGTT
*
40002325 ATTATTT
1 ACTATTT
40002332 AGATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (14 bp):
ACTATTTTGTTGTT
Found at i:40002457 original size:48 final size:48
Alignment explanation
Indices: 40002405--40002502 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
40002395 TGCACATATC
*
40002405 TTAATGTTATTTAAGTATACATATATTTTTTAATTTATTTTTAATTTG
1 TTAATGTTATTTAAGTATACATATATTTTTTAATTTATTTTCAATTTG
*
40002453 TTAATGTTATTTAAGTATACATATATTTTTTCATTTATTTTCAATTTG
1 TTAATGTTATTTAAGTATACATATATTTTTTAATTTATTTTCAATTTG
40002501 TT
1 TT
40002503 GGGAAACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (48 bp):
TTAATGTTATTTAAGTATACATATATTTTTTAATTTATTTTCAATTTG
Found at i:40005497 original size:3 final size:3
Alignment explanation
Indices: 40005489--40005516 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
40005479 ACTAATGTAC
40005489 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
40005517 TTGAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:40005500 original size:125 final size:127
Alignment explanation
Indices: 40005281--40005529 Score: 319
Period size: 125 Copynumber: 2.0 Consensus size: 127
40005271 AAAAAGTAAA
* * *
40005281 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATGTATATATACATCTAATA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACA-GTATATATACATC-AATA
* * * * *
40005346 AGAATATATAGTAATGTTAATGATAATAATAAAAATAATAATAATATTGAAATACAAAAGCTAT
64 AGAATAGACACTAATGTCAATAATAATAATAAAAATAATAATAATATTGAAATACAAAAGCTAT
* *
40005410 TATAATAAAA-AATATTAAAATAAAGT-AATAAAAACATTACTACA-TATATATACAT-ACATGA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACAGTATATATACATCA-AT-A
*
40005471 AG-ATAGACACTAATGTACAATAATAATAATAATAATAATAATAATATTGAAATACAAAA
64 AGAATAGACACTAATGT-CAATAATAATAATAAAAATAATAATAATATTGAAATACAAAA
40005530 AATGTAATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
123 1 0.01
124 13 0.12
125 53 0.50
127 14 0.13
128 15 0.14
129 10 0.09
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (127 bp):
TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACAGTATATATACATCAATAAG
AATAGACACTAATGTCAATAATAATAATAAAAATAATAATAATATTGAAATACAAAAGCTAT
Found at i:40006632 original size:16 final size:16
Alignment explanation
Indices: 40006611--40006649 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
40006601 TATTACAGGT
40006611 GTGTCAGGTGTGGGTG
1 GTGTCAGGTGTGGGTG
40006627 GTGTCAGGTGTGGGTG
1 GTGTCAGGTGTGGGTG
40006643 GTGTCAG
1 GTGTCAG
40006650 ACGCATGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.54, T:0.31
Consensus pattern (16 bp):
GTGTCAGGTGTGGGTG
Found at i:40006866 original size:13 final size:13
Alignment explanation
Indices: 40006850--40006875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40006840 TTTATTTGGT
40006850 TTATTGGGTTTTG
1 TTATTGGGTTTTG
40006863 TTATTGGGTTTTG
1 TTATTGGGTTTTG
40006876 GGGGTGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:40008943 original size:40 final size:39
Alignment explanation
Indices: 40008899--40008975 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
40008889 TTTTTAAAAA
*
40008899 TATATATTTATATTATTTT-TAATTTGATATTTAGTTATTT
1 TATATATTTATATT-TTTTAAAATTTGATATTT-GTTATTT
* *
40008939 TATATATTTTTATTTTTTAAAATTTTATATTTGTTAT
1 TATATATTTATATTTTTTAAAATTTGATATTTGTTAT
40008976 GAATATCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 9 0.27
40 24 0.73
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (39 bp):
TATATATTTATATTTTTTAAAATTTGATATTTGTTATTT
Found at i:40010283 original size:27 final size:27
Alignment explanation
Indices: 40010233--40010337 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
40010223 GCGAGGCTGC
* * * *
40010233 CAGATATTGTGACGAAGTCTCCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
* *
40010260 CAGATATTGTGGCAGAGCCGCCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
40010286 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
*
40010313 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
40010338 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.12
27 57 0.85
28 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:40010742 original size:8 final size:8
Alignment explanation
Indices: 40010726--40010755 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
40010716 CTCAAAATAC
40010726 CGGCTTTT
1 CGGCTTTT
*
40010734 CGGCATTT
1 CGGCTTTT
40010742 CGGCTTTT
1 CGGCTTTT
40010750 CGGCTT
1 CGGCTT
40010756 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:40011964 original size:26 final size:26
Alignment explanation
Indices: 40011933--40012040 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
40011923 TGAAATGCCC
* *
40011933 ATCATGGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
40011959 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
40011985 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
40012011 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40012037 ATCA
1 ATCA
40012041 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40017183 original size:23 final size:23
Alignment explanation
Indices: 40017153--40017199 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
40017143 TTGTTCATAC
40017153 TCTCACTCTTTTACTCTCCCATT
1 TCTCACTCTTTTACTCTCCCATT
40017176 TCTCACTCTTTTACTCTCCCATT
1 TCTCACTCTTTTACTCTCCCATT
40017199 T
1 T
40017200 TTTTTGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.38, G:0.00, T:0.49
Consensus pattern (23 bp):
TCTCACTCTTTTACTCTCCCATT
Found at i:40022747 original size:13 final size:13
Alignment explanation
Indices: 40022729--40022753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40022719 GTGAACAATG
40022729 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
40022742 TTTTCTTTTTTT
1 TTTTCTTTTTTT
40022754 AAACAAGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:40030503 original size:18 final size:18
Alignment explanation
Indices: 40030482--40030520 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
40030472 ATCTTTCCAT
40030482 ACACATATAATAATAAAA
1 ACACATATAATAATAAAA
*
40030500 ACACATATAATAATAATA
1 ACACATATAATAATAAAA
40030518 ACA
1 ACA
40030521 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (18 bp):
ACACATATAATAATAAAA
Found at i:40030890 original size:25 final size:22
Alignment explanation
Indices: 40030861--40030908 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
40030851 AATTAACTAT
*
40030861 TTATT-TTACAATTGTATATATA
1 TTATTATTTCAATTGTATAT-TA
*
40030883 TTATTATTTCATTTGTATATTA
1 TTATTATTTCAATTGTATATTA
40030905 TTAT
1 TTAT
40030909 CACCTTACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTATTTCAATTGTATATTA
Found at i:40038818 original size:19 final size:19
Alignment explanation
Indices: 40038794--40038835 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
40038784 ATAAAGTGTT
40038794 AATTAAGAAAAATTAGTTC
1 AATTAAGAAAAATTAGTTC
40038813 AATTAAGAAAAATTAGTTC
1 AATTAAGAAAAATTAGTTC
40038832 AATT
1 AATT
40038836 TATGGGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTAAGAAAAATTAGTTC
Found at i:40039414 original size:47 final size:48
Alignment explanation
Indices: 40039307--40039497 Score: 208
Period size: 47 Copynumber: 3.9 Consensus size: 48
40039297 AATGTGATTT
* * *
40039307 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTT
1 CCGTATAAGACCATAGCTGGGATATGGCATC-G-G--ATGTGATATGTGCTA
*
40039359 CCGTATAAGACCATATCTGGGATATGGCATCGG-TGTGATATGTGCTA
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
* * * *
40039406 CTGTATAAGACCATATCTGGGATATGGCATCAG-TGTGATATGTGAT-
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
* * * *
40039452 CCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATAGCTGGGATATGGCATCGG-ATGTGATATGTG
40039498 ACTATGTGCA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
46 26 0.21
47 56 0.46
48 11 0.09
50 1 0.01
51 1 0.01
52 28 0.23
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
Found at i:40039472 original size:93 final size:97
Alignment explanation
Indices: 40039309--40039516 Score: 237
Period size: 93 Copynumber: 2.1 Consensus size: 97
40039299 TGTGATTTCC
* * *
40039309 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
40039374 TCTGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCTGGGATATGGCATCGGATGTGATATGTGACTA-T
* * *
40039408 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
* *
40039470 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
40039503 GTGCAAGACCATAG
1 GTATAAGACCATAG
40039517 TTTTACTATG
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
93 29 0.31
94 11 0.12
95 23 0.24
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:40049613 original size:18 final size:18
Alignment explanation
Indices: 40049571--40049615 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
40049561 TCAGGTTATA
* *
40049571 TCAGAACAGGAGCTTGAG
1 TCAGAATAGGAGCCTGAG
*
40049589 TCAGAATAGGAGCCTGAT
1 TCAGAATAGGAGCCTGAG
40049607 TCAGAATAG
1 TCAGAATAG
40049616 TCTTAAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (18 bp):
TCAGAATAGGAGCCTGAG
Found at i:40050156 original size:13 final size:13
Alignment explanation
Indices: 40050138--40050171 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
40050128 GAGTTAGTAT
40050138 GTATGAAAGTTTC
1 GTATGAAAGTTTC
40050151 GTATGAAAGTTTC
1 GTATGAAAGTTTC
*
40050164 GTACGAAA
1 GTATGAAA
40050172 ATTTAATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (13 bp):
GTATGAAAGTTTC
Found at i:40059183 original size:18 final size:18
Alignment explanation
Indices: 40059156--40059192 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40059146 TAGCATAAGG
40059156 AAGGGGGTATGTGGGAAA
1 AAGGGGGTATGTGGGAAA
* *
40059174 AAGGGTGTATGTGTGAAA
1 AAGGGGGTATGTGGGAAA
40059192 A
1 A
40059193 TATTAGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (18 bp):
AAGGGGGTATGTGGGAAA
Found at i:40059351 original size:29 final size:29
Alignment explanation
Indices: 40059319--40059382 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
40059309 CCAAATTAAA
* *
40059319 CACCCCACTAAACTGA-CCACTAACTCCAT
1 CACCCCACTAAAC-CATCCACTAACACCAT
* *
40059348 CACCCTACTAAACCATCCACTACCACCAT
1 CACCCCACTAAACCATCCACTAACACCAT
40059377 CACCCC
1 CACCCC
40059383 CACACCCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.33, C:0.50, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACACCAT
Found at i:40059397 original size:37 final size:37
Alignment explanation
Indices: 40059348--40059418 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
40059338 CTAACTCCAT
40059348 CACCCTACTAAACCATCCACTACCACCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCACCATCACCCCCA
* *
40059385 CACCCTATTAAACCATCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCACCATCACCC
40059419 TACTTGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.52, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCACCATCACCCCCA
Found at i:40059828 original size:19 final size:18
Alignment explanation
Indices: 40059804--40059840 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
40059794 TTATGTTTCA
40059804 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
40059823 TATTATTATATATTTATT
1 TATTATTATATATTTATT
40059841 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:40059831 original size:63 final size:64
Alignment explanation
Indices: 40059692--40059831 Score: 155
Period size: 63 Copynumber: 2.2 Consensus size: 64
40059682 TTTAACCCTT
* * * *
40059692 TTTTTATTTTTGTTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTG
1 TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTG
* *
40059757 TTTTT-TTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTAT
1 TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-T
40059818 -
64 G
40059818 TTATTTATTATTAT
1 TT-TTTATTATTAT
40059832 ATATTTATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
61 17 0.26
62 8 0.12
63 27 0.42
64 8 0.12
65 5 0.08
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (64 bp):
TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTG
Found at i:40059850 original size:17 final size:14
Alignment explanation
Indices: 40059812--40059864 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
40059802 CATATTATTA
*
40059812 TATTATTTATTTAT
1 TATTATATATTTAT
40059826 TATTATATATTTAT
1 TATTATATATTTAT
* *
40059840 TATGTAAATATATA-
1 TAT-TATATATTTAT
40059854 TATCTATATAT
1 TAT-TATATAT
40059865 ACTTTTAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 25 0.76
15 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:40062024 original size:21 final size:21
Alignment explanation
Indices: 40061998--40062038 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
40061988 GATTAGATGC
40061998 TAGAATCCCAGAGAC-ACATGT
1 TAGAATCCCAGA-ACAACATGT
40062019 TAGAATCCCAGAACAACATG
1 TAGAATCCCAGAACAACATG
40062039 ATAAGTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
TAGAATCCCAGAACAACATGT
Found at i:40064637 original size:13 final size:13
Alignment explanation
Indices: 40064621--40064668 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
40064611 AAAAAAAAAG
40064621 AAGAGAAAAAGGA
1 AAGAGAAAAAGGA
40064634 AAGAGAAAAAAGGA
1 AAGAG-AAAAAGGA
40064648 AA-AGGAAAAA-G-
1 AAGA-GAAAAAGGA
40064659 AAGAGAAAAA
1 AAGAGAAAAA
40064669 CAAAAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.25
12 2 0.06
13 11 0.34
14 11 0.34
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAGAAAAAGGA
Found at i:40064673 original size:17 final size:17
Alignment explanation
Indices: 40064639--40064694 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
40064629 AAGGAAAGAG
**
40064639 AAAAAAG-GAAAAGGAA
1 AAAAAAGAGAAAAACAA
*
40064655 AAAGAAGAGAAAAACAA
1 AAAAAAGAGAAAAACAA
40064672 AAAAAAGAGAAAAA-AA
1 AAAAAAGAGAAAAACAA
*
40064688 AGAAAAG
1 AAAAAAG
40064695 CAAAGGAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 14 0.41
17 20 0.59
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAAACAA
Found at i:40064676 original size:26 final size:26
Alignment explanation
Indices: 40064611--40064693 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 26
40064601 CTTAACTTTC
*
40064611 AAAAAAAAAGAAGAGAAAAAGGAAAGAG
1 AAAAAAAAAAAAGAGAAAAA-G-AAGAG
**
40064639 AAAAAAGGAAAAG-GAAAAAGAAGAG
1 AAAAAAAAAAAAGAGAAAAAGAAGAG
40064664 AAAAACAAAAAAAAGAGAAAAA-AA-AG
1 -AAAA-AAAAAAAAGAGAAAAAGAAGAG
40064690 AAAA
1 AAAA
40064694 GCAAAGGAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.19
26 7 0.15
27 15 0.32
28 16 0.34
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAGAGAAAAAGAAGAG
Found at i:40064698 original size:26 final size:27
Alignment explanation
Indices: 40064647--40064698 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
40064637 AGAAAAAAGG
40064647 AAAAGGAAAAAGAAGAGAAAAACAAAA
1 AAAAGGAAAAAGAAGAGAAAAACAAAA
*
40064674 AAAAGAGAAAAA-AA-AGAAAAGCAAA
1 AAAAG-GAAAAAGAAGAGAAAAACAAA
40064699 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 7 0.30
28 6 0.26
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (27 bp):
AAAAGGAAAAAGAAGAGAAAAACAAAA
Found at i:40066331 original size:133 final size:133
Alignment explanation
Indices: 40065950--40066563 Score: 908
Period size: 133 Copynumber: 4.6 Consensus size: 133
40065940 TATTTCGGCA
* *
40065950 AGCCTTATC-CCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAACAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* *
40066014 AGCGGAGCAAATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
66 AGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
*
40066079 ACT
131 ACC
* * *
40066082 AGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCGCTGAGCA
* * * *
40066147 GGAGTGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATGTATCGACAATGGAGTAGATTTCA
64 GGAGCGAAGCAGATCAAATTTTGGTGAA-TCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
40066211 GCCACC
128 GCCACC
* *
40066217 AGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGTAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* *
40066282 AGCGGAGCAGATCAAATTTTGGTGAATATTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
66 AGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
40066347 ACC
131 ACC
*
40066350 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGATCTTATCTTCGCTGAGCAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* * * * **
40066415 AGCAAAGAAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAATC
66 AGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
*
40066480 ATC
131 ACC
* **
40066483 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTTACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCGCTGAGCA
**
40066548 GGAGTAAAGCAGATCA
64 GGAGCGAAGCAGATCA
40066564 CATCTCTGTG
Statistics
Matches: 434, Mismatches: 41, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
132 9 0.02
133 263 0.61
134 9 0.02
135 153 0.35
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (133 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
AGCGAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
ACC
Found at i:40066563 original size:268 final size:267
Alignment explanation
Indices: 40065950--40066551 Score: 924
Period size: 268 Copynumber: 2.3 Consensus size: 267
40065940 TATTTCGGCA
* *
40065950 AGCCTTATC-CCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAACAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* *
40066014 AGCGGAGCAAATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
66 AGCGGAGCAGATCAAATTTTGGTGAATATTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
*
40066079 ACTAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGA
131 ACCAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCT-AACATACCAGATCTTATCTTCACTGA
** * * *
40066144 GCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGACAATGGAGTAGATTT
195 GCAGGAGCAAAGAAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGACAATGGAGCAGATTC
*
40066209 CAGCCACC
260 CAACCACC
* *
40066217 AGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGTAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
40066282 AGCGGAGCAGATCAAATTTTGGTGAATATTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
66 AGCGGAGCAGATCAAATTTTGGTGAATATTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
* * * *
40066347 ACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-ATATACTAGATCTTATCTTCGCTGAG
131 ACCAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAACATACCAGATCTTATCTTCACTGAG
*
40066411 CAGGAGCAAAGAAGATCAAATTTTGATG-AA-TCTTATCTCCATGTATCGGCAATGGAGCAGATT
196 CAGGAGCAAAGAAGATCAAATTTTG--GCAAGTCTTATCTCCATGTATCGACAATGGAGCAGATT
* *
40066474 CCAATCATC
259 CCAACCACC
* **
40066483 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTTACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCGCTGAGCA
40066548 GGAG
64 GGAG
40066552 TAAAGCAGAT
Statistics
Matches: 305, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
266 115 0.38
267 13 0.04
268 177 0.58
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (267 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
AGCGGAGCAGATCAAATTTTGGTGAATATTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCC
ACCAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAACATACCAGATCTTATCTTCACTGAG
CAGGAGCAAAGAAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGACAATGGAGCAGATTCC
AACCACC
Found at i:40066797 original size:29 final size:29
Alignment explanation
Indices: 40066765--40066828 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
40066755 CCAAATTAAA
40066765 CACCCCACTAAACTGA-CCACTAACTCCAT
1 CACCCCACTAAACT-ATCCACTAACTCCAT
* *
40066794 CACCCTACTAAACTATCCACTACCTCCAT
1 CACCCCACTAAACTATCCACTAACTCCAT
40066823 CACCCC
1 CACCCC
40066829 CACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACTATCCACTAACTCCAT
Found at i:40066841 original size:37 final size:37
Alignment explanation
Indices: 40066794--40066864 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
40066784 CTAACTCCAT
*
40066794 CACCCTACTAAACTATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
40066831 CACCCTACTAAACCATCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCC
40066865 TACTTGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:40067275 original size:60 final size:62
Alignment explanation
Indices: 40067150--40067277 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 62
40067140 TTTATTTTTG
* * * *
40067150 TTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTGTTTTTTTA
1 TTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTATTTATTTA
* *
40067213 TTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTATTTATTTA
1 TTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATTATTTATTTA
40067273 TTATT
1 TTATT
40067278 ATATATTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 27 0.47
61 4 0.07
62 20 0.34
63 7 0.12
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (62 bp):
TTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTATTTATTTA
Found at i:40067276 original size:19 final size:18
Alignment explanation
Indices: 40067252--40067288 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
40067242 TTATGTTTCA
40067252 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
40067271 TATTATTATATATTTATT
1 TATTATTATATATTTATT
40067289 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:40067278 original size:63 final size:63
Alignment explanation
Indices: 40067138--40067279 Score: 166
Period size: 62 Copynumber: 2.3 Consensus size: 63
40067128 TTTAACCTTT
* * *
40067138 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* * *
40067202 TTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
40067262 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
40067280 ATATTTATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
60 15 0.22
61 6 0.09
62 23 0.34
63 19 0.28
64 4 0.06
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:40067287 original size:11 final size:12
Alignment explanation
Indices: 40067252--40067309 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 12
40067242 TTATGTTTCA
40067252 TATTAT-TATAT
1 TATTATATATAT
*
40067263 TATT-TATTTAT
1 TATTATATATAT
40067274 TATTATATAT-T
1 TATTATATATAT
* *
40067285 TATTATGTA-AA
1 TATTATATATAT
40067296 TATATATATATAT
1 TAT-TATATATAT
40067309 T
1 T
40067310 TTTAAGCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 24 0.67
12 9 0.25
13 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATATAT
Found at i:40067300 original size:17 final size:14
Alignment explanation
Indices: 40067260--40067290 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
40067250 CATATTATTA
*
40067260 TATTATTTATTTAT
1 TATTATATATTTAT
40067274 TATTATATATTTAT
1 TATTATATATTTAT
40067288 TAT
1 TAT
40067291 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:40086402 original size:13 final size:13
Alignment explanation
Indices: 40086384--40086408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40086374 TTCACTTTTC
40086384 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
40086397 TTTTTTTTTTTG
1 TTTTTTTTTTTG
40086409 GGGAGGGGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:40092523 original size:23 final size:23
Alignment explanation
Indices: 40092493--40092539 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
40092483 AGAAGTAAAT
*
40092493 TAAAAATGGCATTACTTATGCTA
1 TAAAAATGGCATTACTTACGCTA
40092516 TAAAAATGGCATTACTTACGCTA
1 TAAAAATGGCATTACTTACGCTA
40092539 T
1 T
40092540 CCTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (23 bp):
TAAAAATGGCATTACTTACGCTA
Found at i:40095384 original size:20 final size:20
Alignment explanation
Indices: 40095361--40095403 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
40095351 TGTAAATTTG
* *
40095361 TAATAATTTATGTAATTGAA
1 TAATAATTTATATAATTAAA
*
40095381 TAATATTTTATATAATTAAA
1 TAATAATTTATATAATTAAA
40095401 TAA
1 TAA
40095404 GATATTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATAATTTATATAATTAAA
Found at i:40095627 original size:30 final size:27
Alignment explanation
Indices: 40095589--40095665 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 27
40095579 GTAATTTAAT
40095589 TATTATATTTAAACCTTAGAGTAAATTTA
1 TATTATATTTAAACCTTAGAGTAAA--TA
* *
40095618 TATATATATTTAAA-ATT--TG-AAATA
1 TAT-TATATTTAAACCTTAGAGTAAATA
40095642 TATTATATTTAAACCTTAGAGTAA
1 TATTATATTTAAACCTTAGAGTAA
40095666 TCAAGCTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
26 4 0.10
27 3 0.08
29 5 0.13
30 10 0.26
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (27 bp):
TATTATATTTAAACCTTAGAGTAAATA
Found at i:40096877 original size:13 final size:13
Alignment explanation
Indices: 40096861--40096888 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40096851 CTACTAGAGT
40096861 CTTTTGATAGAAC
1 CTTTTGATAGAAC
40096874 CTTTTGATAGAAC
1 CTTTTGATAGAAC
40096887 CT
1 CT
40096889 GTACATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (13 bp):
CTTTTGATAGAAC
Found at i:40108126 original size:13 final size:14
Alignment explanation
Indices: 40108098--40108135 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
40108088 TTTAAGTGAG
40108098 AAATTAATTTAGTT
1 AAATTAATTTAGTT
*
40108112 AATTTAATTTA-TT
1 AAATTAATTTAGTT
40108125 AAATTAATTTA
1 AAATTAATTTA
40108136 ATAACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTAATTTAGTT
Found at i:40108972 original size:41 final size:41
Alignment explanation
Indices: 40108927--40109024 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
40108917 GGTTTCGCAT
40108927 GCCCGTGTGCTAGCCGTGTGTCTCACACGGCCAAGTCACAC
1 GCCCGTGTGCTAGCCGTGTGTCTCACACGGCCAAGTCACAC
* * *
40108968 GCCCGTGTACTAGCCGTGTGTCTTATACGGCCAAGTCACAC
1 GCCCGTGTGCTAGCCGTGTGTCTCACACGGCCAAGTCACAC
*
40109009 GCCAGTGTGTCTAGCC
1 GCCCGTGTG-CTAGCC
40109025 ATATGGATCT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 45 0.88
42 6 0.12
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (41 bp):
GCCCGTGTGCTAGCCGTGTGTCTCACACGGCCAAGTCACAC
Found at i:40111720 original size:40 final size:40
Alignment explanation
Indices: 40111517--40111720 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
40111507 CGGAATTTAA
** *
40111517 CCGGATATAGCTA-CTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TATCTCGCACAAATGCCTTCGGGACTTAGC
* * *
40111557 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
* *
40111597 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
*
40111636 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTATCTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
40111676 CCGGATATGGTCATTTAGCACAAA-GCCTCCGGGACTTAGC
1 CCGGATATAGT-ATCTCGCACAAATGCCTTCGGGACTTAGC
40111716 CCGGA
1 CCGGA
40111721 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 35 0.25
40 90 0.64
41 14 0.10
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40119581 original size:39 final size:40
Alignment explanation
Indices: 40119471--40119694 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
40119461 GCTACTCGTT
* *
40119471 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
40119511 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
40119551 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
40119590 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
40119629 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
40119670 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40119695 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 75 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:40119588 original size:79 final size:77
Alignment explanation
Indices: 40119471--40119694 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 77
40119461 GCTACTCGTT
* *
40119471 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGT-ACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
40119536 ATTTAGTAACTCGCA
63 AATTAGTAACTCGCA
40119551 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTA-CTCGCAC-AATGCCTTCGGGACTTAGCCCGG
*
40119614 AATTAGTATCTCGCA
63 AATTAGTAACTCGCA
* * * * *
40119629 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AC-TCGCACAATGCCTTCGGGACTTAGCCCGG
40119694 A
63 A
40119695 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
78 38 0.30
79 55 0.43
80 34 0.27
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT
TAGTAACTCGCA
Found at i:40121431 original size:101 final size:101
Alignment explanation
Indices: 40121296--40121552 Score: 366
Period size: 101 Copynumber: 2.6 Consensus size: 101
40121286 GGGCTGTCAC
*
40121296 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGATCTTACCTC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
*
40121361 CATAGTACCATAACCCAGTTATGGTCTTATCATCAG
66 CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
* * *
40121397 AATGCCATAGCCCAACTATGGTCTTACATATAAACACTACCATGGTCCAACCATGGTCTTACGTC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
* * * *
40121462 CATAGTGCCATAACTCAGTTTTGGTCTTGTCATCAA
66 CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
* *
40121498 AATTCCATAG--C-TC-A--G-CTTACATATAAACACTGCCATCGTCCAACCATGGTCTTAC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTAC
40121553 GTGCGAATGC
Statistics
Matches: 143, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
94 38 0.27
95 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
101 101 0.71
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (101 bp):
AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
Found at i:40123574 original size:17 final size:18
Alignment explanation
Indices: 40123552--40123585 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40123542 AACGCCTCTG
40123552 TTCTTC-TACTTCTTCAC
1 TTCTTCTTACTTCTTCAC
*
40123569 TTCTTCTTATTTCTTCA
1 TTCTTCTTACTTCTTCA
40123586 AATCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCTTCTTACTTCTTCAC
Found at i:40125403 original size:13 final size:13
Alignment explanation
Indices: 40125385--40125409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40125375 TTTTTTAAAT
40125385 TTAATTTACTAAC
1 TTAATTTACTAAC
40125398 TTAATTTACTAA
1 TTAATTTACTAA
40125410 TTGTTACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTTACTAAC
Found at i:40127475 original size:6 final size:6
Alignment explanation
Indices: 40127464--40127506 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
40127454 TCCAAAACTA
* * * *
40127464 GAAATG GAAATG GTAATG GTAATG GTAATG TAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG G
40127507 TCCATTTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (6 bp):
GAAATG
Found at i:40127686 original size:26 final size:26
Alignment explanation
Indices: 40127650--40127699 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
40127640 ACCTTTTTTC
40127650 TCAAAATTTTA-TCAGGGGTAAAATCG
1 TCAAAATTTTACT-AGGGGTAAAATCG
40127676 TCAAAATTTTACTAGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
40127700 AGGAATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCG
Found at i:40131976 original size:29 final size:29
Alignment explanation
Indices: 40131937--40132015 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
40131927 CTTAATAATC
*
40131937 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
40131967 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
40131996 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40132016 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:40135834 original size:55 final size:53
Alignment explanation
Indices: 40135773--40135910 Score: 161
Period size: 55 Copynumber: 2.6 Consensus size: 53
40135763 GTGAGGTTTC
*
40135773 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGAT-C-A
* * * * * * * *
40135828 TGAGGCAAAGG-TCCCATGTAAGACCAGGCCAAGGCATGGCATTGGTGAGATCA
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGATCA
40135881 TAAGGCAAGGATACCATGTAAGACCATGTC
1 TAAGGCAAGGATACCATGTAAGACCATGTC
40135911 GGGACATGGC
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
52 4 0.06
53 22 0.32
54 1 0.01
55 37 0.54
56 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGATCA
Found at i:40135930 original size:108 final size:110
Alignment explanation
Indices: 40135731--40135931 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
40135721 TTTAAGGATA
* * * *
40135731 CCATGTGAGATCATGCCAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATCTAAGGCAAGGATACCATGTAAGA
*
40135796 CCATGTCAAGACATGACATTGATAAGTTACTATGAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATGAGGCAAAGGTC
40135841 CCATGTAAGACCAGGCCAAGGCATGGC-ATTGGTGA-G-ATCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATC-TAAGGCAAGGATACCATGTAAG
** * *
40135903 ACCATGTCGGGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
40135932 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.58
109 8 0.10
110 24 0.30
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATGAGGCAAAGGTC
Found at i:40140521 original size:14 final size:13
Alignment explanation
Indices: 40140500--40140561 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
40140490 TAGGGGAGAA
*
40140500 AAGAA-AAACAAG
1 AAGAAGAAAAAAG
40140512 AAGAAGAAAAATAG
1 AAGAAGAAAAA-AG
*
40140526 AAGAAGAGAAAATG
1 AAGAAGA-AAAAAG
40140540 AA-AA-AAAAAAG
1 AAGAAGAAAAAAG
*
40140551 AAAAAGAAAAA
1 AAGAAGAAAAA
40140562 TATAAATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 7 0.17
12 8 0.19
13 11 0.26
14 12 0.29
15 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (13 bp):
AAGAAGAAAAAAG
Found at i:40140548 original size:11 final size:12
Alignment explanation
Indices: 40140498--40140561 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 12
40140488 TATAGGGGAG
*
40140498 AAAAGAAAAACA
1 AAAAGAAAAAGA
* *
40140510 AGAAGAAGAA-A
1 AAAAGAAAAAGA
*
40140521 AATAGAAGAAGAGA
1 AAAAGAA-AA-AGA
*
40140535 AAATGAAAAA-A
1 AAAAGAAAAAGA
40140546 AAAAGAAAAAGA
1 AAAAGAAAAAGA
40140558 AAAA
1 AAAA
40140562 TATAAATTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
11 16 0.40
12 15 0.38
13 3 0.08
14 6 0.15
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:40140549 original size:6 final size:6
Alignment explanation
Indices: 40140498--40140561 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
40140488 TATAGGGGAG
* * * * *
40140498 AAAAGA AAAACA AGAAGA AGAA-A AATAGA AGAAGAGA AAATGA AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A-AA-AGA AAAAGA AAAAGA
40140546 AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAA
40140562 TATAAATTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 8 0.17
6 31 0.67
7 3 0.07
8 4 0.09
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:40142504 original size:40 final size:40
Alignment explanation
Indices: 40142449--40142670 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
40142439 TATTCGGATG
*
40142449 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
40142489 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
40142529 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
40142569 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
40142609 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
40142649 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40142671 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 152 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:40143109 original size:3 final size:3
Alignment explanation
Indices: 40143101--40143136 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
40143091 AAACATACTA
40143101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
40143137 TAAAACATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:40151765 original size:14 final size:13
Alignment explanation
Indices: 40151742--40151783 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
40151732 TTTTCTTTCA
40151742 TTTT-TTATTACTT
1 TTTTATTATTA-TT
40151755 TTTTATTATTATT
1 TTTTATTATTATT
40151768 TCTTTATTATTATT
1 T-TTTATTATTATT
40151782 TT
1 TT
40151784 ACTTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:40151772 original size:17 final size:17
Alignment explanation
Indices: 40151746--40151788 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
40151736 CTTTCATTTT
*
40151746 TTATTACTTTTTTATTA
1 TTATTACTTTATTATTA
*
40151763 TTATTTCTTTATTATTA
1 TTATTACTTTATTATTA
40151780 TT-TTACTTT
1 TTATTACTTT
40151789 GTTTCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTACTTTATTATTA
Found at i:40153504 original size:6 final size:6
Alignment explanation
Indices: 40153489--40153553 Score: 94
Period size: 6 Copynumber: 10.8 Consensus size: 6
40153479 ATTGAGTCCA
* * *
40153489 TTTATC TTTATG TTTATG TTTATG TTTATT TTTATG TTTATG TTTATT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
*
40153537 TTTATT TTTATG TTTAT
1 TTTATG TTTATG TTTAT
40153554 TTTGTCTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (6 bp):
TTTATG
Found at i:40153516 original size:18 final size:18
Alignment explanation
Indices: 40153489--40153556 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
40153479 ATTGAGTCCA
* *
40153489 TTTATCTTTATGTTTATG
1 TTTATGTTTATTTTTATG
40153507 TTTATGTTTATTTTTATG
1 TTTATGTTTATTTTTATG
*
40153525 TTTATGTTTATTTTTATT
1 TTTATGTTTATTTTTATG
40153543 TTTATGTTTATTTT
1 TTTATGTTTATTTT
40153557 GTCTTTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.16, C:0.01, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTATGTTTATTTTTATG
Found at i:40159819 original size:41 final size:41
Alignment explanation
Indices: 40159758--40159917 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
40159748 CGATTCTTAG
*
40159758 CACTGACTCAAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
1 CACTGGCTC-AAAAGCCCTTCGAGACCAAGCTCGGATTATGA
* * * * * * * * *
40159800 CATTGGCCCGAAGGCCCTTCAAAACTAGGTTCGG-TTATGA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
40159840 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
40159881 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
40159918 TAAACCCCAA
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
40 31 0.32
41 61 0.62
42 6 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
Found at i:40168152 original size:41 final size:41
Alignment explanation
Indices: 40168034--40168183 Score: 196
Period size: 41 Copynumber: 3.7 Consensus size: 41
40168024 CGCTGACTCA
* * *
40168034 AAAAGCCCTTC-AAGACCAAGCTCGGAATATGACATTGGCCC
1 AAAAGCCCTTCGAA-ACCAAGCTCGGATTATGACACTGGCTC
* * * * *
40168075 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAAACCAAGCTCGGATTATGACACTGGCTC
40168115 AAAAGCCCTTCGAAACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAAACCAAGCTCGGATTATGACACTGGCTC
*
40168156 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAAACCAAGCTCGGATT
40168184 TAAACCCCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
40 32 0.34
41 59 0.63
42 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAAACCAAGCTCGGATTATGACACTGGCTC
Found at i:40176698 original size:17 final size:17
Alignment explanation
Indices: 40176669--40176701 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40176659 CAGAATCGGG
40176669 TTGAGAAAATTATTTAC
1 TTGAGAAAATTATTTAC
40176686 TTGA-AAAAGTTATTTA
1 TTGAGAAAA-TTATTTA
40176702 TTTATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAAATTATTTAC
Found at i:40177724 original size:13 final size:13
Alignment explanation
Indices: 40177706--40177730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40177696 TAAATGAAAA
40177706 ATTATTTATTTTT
1 ATTATTTATTTTT
40177719 ATTATTTATTTT
1 ATTATTTATTTT
40177731 CTAAGATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTTATTTTT
Found at i:40181461 original size:50 final size:49
Alignment explanation
Indices: 40181294--40181518 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
40181284 CTGGTACGTA
* * *
40181294 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
40181343 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
40181392 TAGTAGCCTGCACTTAGTACTACACACGTTACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * ***
40181442 TGGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTTCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
40181493 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
40181519 TGCGACCTCA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 78 0.51
50 41 0.27
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:40181466 original size:99 final size:100
Alignment explanation
Indices: 40181293--40181525 Score: 308
Period size: 99 Copynumber: 2.3 Consensus size: 100
40181283 TCTGGTACGT
* * ** *
40181293 ATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTGCACTT
40181358 AGTACTACACACGTGA-C-CAATTATCCGGTACAC
66 AGTACTACACACGTGATCACAATTATCCGGTACAC
* ** * *
40181391 GTAGTAGCCTGCACTTAGTACTACACACGTTACCTAACCATCTGATACACGTGGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGCCTGCACT
* * **
40181456 TAGTACTACACACGTGATCACAATTTTCGGGTACGT
65 TAGTACTACACACGTGATCACAATTATCCGGTACAC
*
40181492 ATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACC
40181526 TCACAATAGA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
98 29 0.25
99 42 0.37
100 1 0.01
101 42 0.37
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCACAATTATCCGGTACAC
Found at i:40185045 original size:46 final size:45
Alignment explanation
Indices: 40184995--40185170 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
40184985 TGGTTGAGCA
40184995 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
40185041 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TA-TG-GA-T-GCGAAG
40185088 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
40185134 CCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40185171 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40185153 original size:93 final size:93
Alignment explanation
Indices: 40184992--40185162 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
40184982 GGATGGTTGA
* *
40184992 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40185057 TGAGTCCGAGTTCGTGAATTGTAACTAG
66 TGAGTCCGAGTTCGTGAATTGTAACTAG
* *
40185085 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40185150 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40185163 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATTGTAACTAG
Found at i:40190613 original size:24 final size:23
Alignment explanation
Indices: 40190584--40190652 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
40190574 AAATGATTAA
40190584 GACTATAGTTGAAAGACACTATG
1 GACTATAGTTGAAAGACACTATG
* * * * *
40190607 GTACTATACTGGAAATA-AATA-A
1 G-ACTATAGTTGAAAGACACTATG
*
40190629 GACCATAGTTGAAAGACACTATG
1 GACTATAGTTGAAAGACACTATG
40190652 G
1 G
40190653 CACCATACTA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
21 11 0.34
22 4 0.12
23 5 0.16
24 12 0.38
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (23 bp):
GACTATAGTTGAAAGACACTATG
Found at i:40190637 original size:45 final size:45
Alignment explanation
Indices: 40190572--40190928 Score: 217
Period size: 45 Copynumber: 7.9 Consensus size: 45
40190562 TTGGCTTGAA
* * * *
40190572 GGAAATGATTAAGACTATAGTTGAAAGACACTATGGTACTATACT
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
*
40190617 GGAAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
* * * * * ** * *
40190662 AGAAACGAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGA-T
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCA-TACT
*** * *
40190707 -TTTATCAAGTAAGACCATAGCTGAAAGACACTATGGCATCACGA-AC-
1 GGAAATGAA-TAAGACCATAGTTGAAAGACACTATGGCA-C-C-ATACT
* ** * * * *
40190753 -CAAACCAATAAGACCATAGTTGACAGATACTATGGCAACACGAC-
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCA-TACT
* * *
40190797 GGAAAATGAAAAAGACCATAGTTGAAAGAAACTATGGCAACATGA-T
1 GG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCAT-ACT
* * * * *
40190843 GGAAAATGAATAAGACTATGGTTGAAAGACATTATGGCATCA-AGT
1 GG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
* * ** *
40190888 CGAGAATAAATAAGACCACGGTTGAAAGACACCATGGCACC
1 GGA-AATGAATAAGACCATAGTTGAAAGACACTATGGCACC
40190929 CTCCGATCAT
Statistics
Matches: 245, Mismatches: 53, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 6 0.02
45 158 0.64
46 77 0.31
47 1 0.00
48 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (45 bp):
GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
Found at i:40190821 original size:46 final size:46
Alignment explanation
Indices: 40190717--40190881 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 46
40190707 TTTATCAAGT
* * * * ** *
40190717 AAGACCATAGCTGAAAGACACTATGGCATCACGAAC--CAAACCAAT
1 AAGACCATAGTTGAAAGAAACTATGGCAACACG-ACGGAAAATGAAA
* *
40190762 AAGACCATAGTTGACAGATACTATGGCAACACGACGGAAAATGAAA
1 AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
* * *
40190808 AAGACCATAGTTGAAAGAAACTATGGCAACATGATGGAAAATGAAT
1 AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
* * * *
40190854 AAGACTATGGTTGAAAGACATTATGGCA
1 AAGACCATAGTTGAAAGAAACTATGGCA
40190882 TCAAGTCGAG
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
44 2 0.02
45 29 0.29
46 70 0.69
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (46 bp):
AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
Found at i:40192898 original size:8 final size:8
Alignment explanation
Indices: 40192885--40192909 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
40192875 CATATTTATG
40192885 CAAAATTA
1 CAAAATTA
40192893 CAAAATTA
1 CAAAATTA
40192901 CAAAATTA
1 CAAAATTA
40192909 C
1 C
40192910 CCCTAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (8 bp):
CAAAATTA
Found at i:40196137 original size:39 final size:40
Alignment explanation
Indices: 40196050--40196234 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
40196040 GCTACTCGTT
*
40196050 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40196090 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40196129 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40196169 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40196210 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40196235 CATCATTCAA
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 42 0.32
40 76 0.58
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40196153 original size:79 final size:81
Alignment explanation
Indices: 40196050--40196234 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 81
40196040 GCTACTCGTT
*
40196050 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
40196113 GGATTTAGT-AC-TCGCA
64 GGATATAGTCACTTAGCA
* **
40196129 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
40196194 ATATGGTCACTTAGCA
66 ATATAGTCACTTAGCA
40196210 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40196235 CATCATTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
78 3 0.03
79 59 0.63
80 24 0.26
81 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGCA
Found at i:40204073 original size:48 final size:48
Alignment explanation
Indices: 40203943--40204121 Score: 180
Period size: 48 Copynumber: 3.7 Consensus size: 48
40203933 ATTTATGAGA
* * * * * *
40203943 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGACATGGATATGAGA
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
* * **
40203991 GCCAGTATAAGACCATGTCTGGGACATAACATCGGCATCGATATGTGT
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
* * * * *
40204039 GCCAGTGTAAGACCATATCTAGGATATGGCATCGGCCTTGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTG-T
** *
40204088 TTCA-TGTAAGACCATATCTGGGATATGGCATCGG
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGG
40204122 TATGTAGACC
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 107 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
Found at i:40206747 original size:45 final size:45
Alignment explanation
Indices: 40206697--40206784 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
40206687 CCAAAACATG
* *
40206697 TGTCACATGCATTATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
*
40206742 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
40206785 GATCGCATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:40206785 original size:21 final size:21
Alignment explanation
Indices: 40206716--40206786 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
40206706 CATTATGAAC
40206716 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * * **
40206737 TCAAATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
40206761 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
40206782 TCAGA
1 TCAGA
40206787 TCGCATAGTT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.40
22 4 0.11
23 4 0.11
24 9 0.26
25 2 0.06
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:40208410 original size:31 final size:31
Alignment explanation
Indices: 40208372--40208450 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
40208362 TTTAACGGTT
40208372 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
40208403 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
40208434 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40208451 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:40208521 original size:42 final size:42
Alignment explanation
Indices: 40208474--40208554 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
40208464 TGGCCCATAG
* * *
40208474 GCCCATTTCAATATCACATGTAATATCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
40208516 GCCCATTTCAATATCATATGAAATACCAATGAATGTATG
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATG
40208555 TGTGACAGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:40210247 original size:79 final size:81
Alignment explanation
Indices: 40210111--40210295 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
40210101 TTAAATGATG
*
40210111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40210175 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40210190 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40210252 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
40210270 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40210296 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:40210309 original size:40 final size:40
Alignment explanation
Indices: 40210112--40210295 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40210102 TAAATGATGT
* * * *
40210112 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
40210152 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
40210192 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40210230 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40210271 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40210296 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40210317 original size:79 final size:79
Alignment explanation
Indices: 40210164--40210328 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
40210154 GGACTAAGAT
* **
40210164 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
40210229 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40210243 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
40210306 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40210322 CCGAAGG
1 CCGAAGG
40210329 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40218141 original size:79 final size:81
Alignment explanation
Indices: 40218005--40218189 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
40217995 TTGAATGATG
*
40218005 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40218069 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40218084 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40218146 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
40218164 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40218190 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:40218203 original size:40 final size:40
Alignment explanation
Indices: 40218006--40218189 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40217996 TGAATGATGT
* * * *
40218006 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
40218046 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
40218086 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40218124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40218165 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40218190 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40218211 original size:79 final size:79
Alignment explanation
Indices: 40218058--40218222 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
40218048 GGACTAAGAT
* **
40218058 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
40218123 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40218137 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
40218200 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40218216 CCGAAGG
1 CCGAAGG
40218223 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40219759 original size:51 final size:52
Alignment explanation
Indices: 40219697--40219816 Score: 190
Period size: 52 Copynumber: 2.3 Consensus size: 52
40219687 TTTTAATAAT
* * *
40219697 TGGGGCA-AAGCCCTTTTTGGTAAATTGGGGCA-AAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTCTCAATAAAC
*
40219747 TGGGTCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTCTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTCTCAATAAAC
40219799 TGGGGCATAAGCCCTTTT
1 TGGGGCATAAGCCCTTTT
40219817 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 6 0.10
51 23 0.37
52 34 0.54
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (52 bp):
TGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTCTCAATAAAC
Found at i:40219763 original size:26 final size:26
Alignment explanation
Indices: 40219681--40219816 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
40219671 CTGGAGGCCT
*
40219681 AGCCTCTTTT-AAT-AATTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*** *
40219705 AGCCCTTTTTGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
40219730 AGCCCTTTTCAATAAACTGGGTCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
40219756 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
40219782 AGCCCTTCTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
40219808 AGCCCTTTT
1 AGCCCTTTT
40219817 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.32
26 55 0.58
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:40219891 original size:20 final size:20
Alignment explanation
Indices: 40219866--40219932 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
40219856 TTATGAATAC
40219866 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
40219886 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
40219906 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
40219926 ATCATGT
1 ATCATGT
40219933 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:40220669 original size:27 final size:27
Alignment explanation
Indices: 40220639--40220703 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
40220629 GGGCATATTC
40220639 GTCATTTTACCATACAAGGG-TATTACA
1 GTCATTTTACCATACAAGGGCT-TTACA
* * * *
40220666 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACA
*
40220693 GTCTTTTTACC
1 GTCATTTTACC
40220704 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACA
Found at i:40220787 original size:27 final size:27
Alignment explanation
Indices: 40220754--40221003 Score: 143
Period size: 27 Copynumber: 9.2 Consensus size: 27
40220744 TTGGTAAATC
*
40220754 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
** * *
40220781 TGTAAACTAATGGTATTTTTA-TAATTTT
1 TACAAACTAAGGGTA-TTTCAGTAA-TTT
* * *
40220809 TAGAAAGTTAAGGGTAATTCTA-TAATTGT
1 TACAAA-CTAAGGGTATTTC-AGTAATT-T
* **
40220838 GTA-AATC-AAGGGTATTTTGGTAATTT
1 -TACAAACTAAGGGTATTTCAGTAATTT
* *
40220864 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * *
40220891 CACAAAC-CAGTGGTATTTCGGTAATTT
1 TACAAACTAAG-GGTATTTCAGTAATTT
* **
40220918 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* ** *
40220945 TACAAACTAGGGGTATTTTGGTAATTC
1 TACAAACTAAGGGTATTTCAGTAATTT
** *
40220972 TATCTTA-TAGGGGTATTTCAGTAATTT
1 TA-CAAACTAAGGGTATTTCAGTAATTT
*
40220999 CACAA
1 TACAA
40221004 TCGAGGGTAA
Statistics
Matches: 173, Mismatches: 38, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.01
26 6 0.03
27 131 0.76
28 18 0.10
29 14 0.08
30 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCAGTAATTT
Found at i:40220906 original size:54 final size:54
Alignment explanation
Indices: 40220847--40221003 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
40220837 TGTAAATCAA
40220847 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
* * * ** * *
40220901 TGGTATTTCGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCAG
* ** *
40220955 GGGTATTTTGGTAATTCTATCTTATAG-GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCAGTAATTTCACAA
40221004 TCGAGGGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 1 0.01
54 80 0.96
55 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
Found at i:40221036 original size:27 final size:27
Alignment explanation
Indices: 40221002--40221197 Score: 284
Period size: 27 Copynumber: 7.3 Consensus size: 27
40220992 GTAATTTCAC
* * *
40221002 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
40221029 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
**
40221056 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
40221083 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
40221110 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
40221137 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
40221164 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
40221191 AATCGAG
1 AATCGAG
40221198 AGCATTTCAG
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:40221112 original size:81 final size:81
Alignment explanation
Indices: 40221002--40221197 Score: 320
Period size: 81 Copynumber: 2.4 Consensus size: 81
40220992 GTAATTTCAC
* * * * *
40221002 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
40221067 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
40221083 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
*
40221148 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
*
40221164 AATCGAGGGTAAAATGGTAATTCTACAAATCGAG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAG
40221198 AGCATTTCAG
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:40222367 original size:25 final size:25
Alignment explanation
Indices: 40222339--40222405 Score: 134
Period size: 25 Copynumber: 2.7 Consensus size: 25
40222329 TTATTAAACA
40222339 AATGACCAAAATGCCCTTAAGGTCT
1 AATGACCAAAATGCCCTTAAGGTCT
40222364 AATGACCAAAATGCCCTTAAGGTCT
1 AATGACCAAAATGCCCTTAAGGTCT
40222389 AATGACCAAAATGCCCT
1 AATGACCAAAATGCCCT
40222406 AAAGCCTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (25 bp):
AATGACCAAAATGCCCTTAAGGTCT
Done.